Base Info

An object of class Seurat 46265 features across 49146 samples within 2 assays Active assay: SCT (18998 features) 1 other assay present: RNA 3 dimensional reductions calculated: pca, umap, tsne

The Seurat object was generated with Seurat 3.1.4.

Table of Data

Tissue Data

Annotated Cell Types

Calculated Clusters

Environment

## R version 3.6.3 (2020-02-29)
## Platform: x86_64-apple-darwin18.7.0 (64-bit)
## Running under: macOS Mojave 10.14.6
## 
## Matrix products: default
## BLAS:   /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
## LAPACK: /usr/local/Cellar/openblas/0.3.9/lib/libopenblasp-r0.3.9.dylib
## 
## locale:
## [1] en_CA.UTF-8/en_CA.UTF-8/en_CA.UTF-8/C/en_CA.UTF-8/en_CA.UTF-8
## 
## attached base packages:
## [1] stats     graphics  grDevices utils     datasets  methods   base     
## 
## other attached packages:
## [1] plotly_4.9.2.1 knitr_1.28     dplyr_0.8.5    rmarkdown_2.1  Seurat_3.1.0   ggplot2_3.3.0  shiny_1.4.0.2 
## 
## loaded via a namespace (and not attached):
##   [1] TH.data_1.0-10      Rtsne_0.15          colorspace_1.4-1    ellipsis_0.3.0      ggridges_0.5.2      rstudioapi_0.11     farver_2.0.3        leiden_0.3.3       
##   [9] listenv_0.8.0       npsurv_0.4-0.1      ggrepel_0.8.2       mvtnorm_1.1-0       codetools_0.2-16    splines_3.6.3       R.methodsS3_1.8.0   mnormt_1.5-7       
##  [17] lsei_1.2-0.1        TFisher_0.2.0       jsonlite_1.6.1      ica_1.0-2           cluster_2.1.0       png_0.1-7           R.oo_1.23.0         uwot_0.1.8         
##  [25] sctransform_0.2.1   compiler_3.6.3      httr_1.4.1          assertthat_0.2.1    Matrix_1.2-18       fastmap_1.0.1       lazyeval_0.2.2      later_1.0.0        
##  [33] htmltools_0.4.0     tools_3.6.3         rsvd_1.0.3          igraph_1.2.5        gtable_0.3.0        glue_1.4.0          RANN_2.6.1          reshape2_1.4.4     
##  [41] Rcpp_1.0.4.6        Biobase_2.44.0      vctrs_0.2.4         multtest_2.40.0     ape_5.3             nlme_3.1-147        gbRd_0.4-11         lmtest_0.9-37      
##  [49] xfun_0.13           stringr_1.4.0       globals_0.12.5      mime_0.9            lifecycle_0.2.0     irlba_2.3.3         future_1.17.0       MASS_7.3-51.6      
##  [57] zoo_1.8-8           scales_1.1.0        promises_1.1.0      parallel_3.6.3      sandwich_2.5-1      RColorBrewer_1.1-2  yaml_2.2.1          reticulate_1.15    
##  [65] pbapply_1.4-2       gridExtra_2.3       stringi_1.4.6       mutoss_0.1-12       plotrix_3.7-8       BiocGenerics_0.30.0 bibtex_0.4.2.2      Rdpack_0.11-1      
##  [73] SDMTools_1.1-221.2  rlang_0.4.6         pkgconfig_2.0.3     evaluate_0.14       lattice_0.20-41     ROCR_1.0-11         purrr_0.3.4         labeling_0.3       
##  [81] htmlwidgets_1.5.1   cowplot_1.0.0       tidyselect_1.0.0    RcppAnnoy_0.0.16    plyr_1.8.6          magrittr_1.5        R6_2.4.1            multcomp_1.4-13    
##  [89] pillar_1.4.4        withr_2.2.0         sn_1.6-1            fitdistrplus_1.0-14 survival_3.1-12     tibble_3.0.1        future.apply_1.5.0  tsne_0.1-3         
##  [97] crayon_1.3.4        KernSmooth_2.23-17  grid_3.6.3          data.table_1.12.8   metap_1.3           digest_0.6.25       xtable_1.8-4        tidyr_1.0.3        
## [105] httpuv_1.5.2        numDeriv_2016.8-1.1 R.utils_2.9.2       stats4_3.6.3        munsell_0.5.0       viridisLite_0.3.0